Stephen R. Kappes was the Deputy Director of the Central Intelligence Agency, until his resignation on April 14, 2010. He had served in the CIA since 1981, with a two-year hiatus. A career clandestine operations professional, Kappes supervised the extraordinary rendition program, a non-judicial system of rendering persons suspected of terrorism to secret locations where most of them were interrogated. Kappes also helped persuade Libyan leader Muammar al-Gaddafi to abandon his nuclear weapons program in 2003. In 2009, Kappes was convicted in absentia by an Italian court for his headquarters-based role in the rendition and torture of an Egyptian citizen who was kidnapped from Italian soil by the CIA.
Towards the end of his tenure with the CIA, he worked with President George W. Bush in negotiations with Libya that ended that country's weapons-of-mass-destruction programs. In a joint diplomatic mission with the United Kingdom's MI6 head of counter terrorism Sir Mark Allen, the pair engaged with Libya's secret service head, which resulted in an end of support for terrorist activity by Colonel Muammar al-Gaddafi’s Libya, and a resultant end of international sanctions against Libya.
Kappes was named Deputy Director for Operations for the CIA in June 2004 and took office in August 2004 while the appointment of Porter Goss as the next Director of Central Intelligence was still pending in the Senate. Kappes succeeded James Pavitt, who resigned in June 2004. Both Kappes and Pavitt oversaw the CIA’s Directorate for Operations during the controversial Iraq WMD reporting. He served in that position until he resigned in November 2004. John E. McLaughlin, the then-Deputy Director of Central Intelligence, announced his departure the same week Kappes quit, thus exacerbating the rumored management problems for Goss.
Dramatic departure in 2004
It had been widely reported in the press that Kappes quit the Agency rather than carry out a request by Goss to reassign Michael Sulick, his then deputy. It is also reported that this incident occurred because Goss's chief of staff admonished the then assistant Deputy Director for Counterintelligence, Mary Margaret Graham – who later worked for the Director of National IntelligenceJohn Negroponte – about leaking personnel information. According to some news reports, Sulick had engaged in a shouting match with Goss's chief of staff. For a brief period in between his appointments at the CIA, Kappes worked in the private security industry. In April 2005, ArmorGroup, a British security firm, named him vice president in charge of global strategy, and named him Chief Operating Officer in November 2005.
Per official reports, Kappes was responsible for the alteration of records regarding the death of a detainee at the 'Salt Pit', a secret CIA interrogation operation in Afghanistan. A detainee froze to death, after having been showered with water, and left outside overnight. Kappes made certain that the death was retained 'off the books'. According to two former officials who read a CIA inspector general's report on the incident, Kappes coached the base chief—whose identity is being withheld at the request of the CIA—on how to respond to the agency's investigators. They would report it as an accident.
Sudden retirement, no explanation
On April 14, 2010, CIA Director Leon E. Panetta reported that Kappes would be retiring in May. The odd timing of the retirement, and lack of Presidential thanks for his years of service, led many to comment that this was a departure in disgrace.